View source: R/BiofeatureGraphics.R
segmentalDups_UCSC | R Documentation |
Create one track of the genomic positions of regions from segmentalDups_UCSC using the Gviz bioconductor package
segmentalDups_UCSC(gen, chr, start, end,title="Segmental Dups UCSC")
gen |
the name of the genome |
chr |
the chromosome of interest |
start |
the first position in the region of interest (the smallest value) |
end |
the last position in the region of interest (the largest value) |
title |
The name of the annotation track |
An UcscTrack object of Gviz
Tiphaine Martin
Tom Hardiman
http://bioconductor.org/packages/release/bioc/html/Gviz.html
http://genome-euro.ucsc.edu/cgi-bin/hgTrackUi?hgsid=202839739_2hYQ1BAOuBMAR620GjrtdrFAy6dn&c=chr6&g=rmsk
library("Gviz") gen <- "hg38" chr <- "chr2" start <- 100000 end <- 200000 if(interactive()){ DupTrack <-segmentalDups_UCSC(gen,chr,start,end) plotTracks(DupTrack, from = start, to = end, fontfamily="sans",fontfamily.title="sans") } else { data(DupTrack) plotTracks(DupTrack, from = start, to = end, fontfamily="sans",fontfamily.title="sans") }
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